|
| Status |
Public on Oct 24, 2016 |
| Title |
Salamander: biological rep3 |
| Sample type |
RNA |
| |
|
| Source name |
Tail tissues from tadpoles with Salamanders for 8 days
|
| Organism |
Rana pirica |
| Characteristics |
tissue: tail
stress: larval salamanders for 8 days
|
| Treatment protocol |
Tail tissue was dissected from each tadpole, cut into small pieces, and collected together in a single tube containing RNAlaterTM (QIAGEN RNA stabilization reagent) for subsequent use in producing RNA probes for the functional microarray analysis. The tissues were stored at -80°C until RNA extraction.
|
| Growth protocol |
Tadpoles before growing hind limb.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was obtained using the Qiagen RNA medium preparation system. RNA yield was measured by absorbance at 260 nm and the quality was assessed by confirming the integrity of the rRNA bands by electrophoresis.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Xenopus Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using GeneChip Scanner 3000. The data were analyzed with GeneChip Operating Software (GCOS) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
|
| Description |
Gene expression data from tail tissues of Rana pirica tadpoles with larval salamanders.
|
| Data processing |
The data were analyzed first with GCOS algorithm MAS 5 and then using GeneSpringGX11.5.1.
|
| |
|
| Submission date |
Oct 26, 2011 |
| Last update date |
Oct 24, 2016 |
| Contact name |
Tsukasa Mori |
| E-mail(s) |
mori.tsukasa@nihon-u.ac.jp
|
| Phone |
01-(81)-466-84-3682
|
| Fax |
01-(81)-466-84-3682
|
| URL |
http://01-(81)-466-84-3682
|
| Organization name |
Nihon University
|
| Department |
Bioresource Sciences
|
| Lab |
Marine Molecular Biochemistry
|
| Street address |
Kameino 1866
|
| City |
Fujisawa |
| State/province |
Kanagawa |
| ZIP/Postal code |
252−0880 |
| Country |
Japan |
| |
|
| Platform ID |
GPL1318 |
| Series (1) |
| GSE33250 |
Gene expression in the tail tissue of tadpoles [Rana pirica] by larvae salamander or dragon fly |
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